Opportunities for bioprocess monitoring using FRET biosensors

Biochemical Society Transactions

Volumn 41, Issue 5, 2013, Pages 1146-1151

  Constantinou, Antony ^a   Polizzi, Karen M ^a  

^a IMPERIAL COLLEGE LONDON   (United Kingdom)

Author keywords

Bioprocessing; Biosensor; F rster resonance energy transfer (FRET); Industrial biotechnology; Synthetic biology

Indexed keywords

FLUORESCENT DYE; GLUCOSE; GLUTAMINE; TRACE ELEMENT;

AMINO ACID SYNTHESIS; ARTICLE; BIOLOGICAL MONITORING; BIOPROCESS; BIOSENSOR; CALCULATION; CELL CULTURE; CELL METABOLISM; CELL PH; CONFORMATIONAL TRANSITION; DATA BASE; FED BATCH REACTOR; FLOW RATE; FLUORESCENCE RESONANCE ENERGY TRANSFER; HIGH PERFORMANCE LIQUID CHROMATOGRAPHY; MACROMOLECULE; NONHUMAN; ONLINE MONITORING; OXIDATION REDUCTION POTENTIAL; PH; PRIORITY JOURNAL; PROTEIN ANALYSIS; PROTEIN DOMAIN; PROTEIN SYNTHESIS; SIGNAL TRANSDUCTION; SPECTRAL SENSITIVITY; SYNTHETIC BIOLOGY;

BIOSENSING TECHNIQUES; FLUORESCENCE RESONANCE ENERGY TRANSFER; HUMANS; PROTEIN BINDING; PROTEIN STRUCTURE, TERTIARY; PROTEINS; SIGNAL TRANSDUCTION;

EID: 84884617349     PISSN: 03005127     EISSN: 14708752     Source Type: Journal    
DOI: 10.1042/BST20130103     Document Type: Article

References (50)

1. Clementschitsch, F. and Bayer, K. (2006) Improvement of bioprocess monitoring: development of novel concepts. Microb. Cell Fact. 5, 19
2. Caramihai, M. and Severin, I. (2013) Bioprocess modeling and control. In Biomass Now: Sustainable Growth and Use (Matovic, D.B., ed.), InTech, Rijeka
3. Vojinovic, V., Cabral, J.M.S. and Fonseca, L.P. (2006) Real-time bioprocess monitoring. Part I: In situ sensors. Sens. Actuators, B 114, 1083-1091
4. Song, Y., Zhang, D., Polizzi, K.M., Zhang, E.G., Li, G. and Huang, W.E. (2012) Trends of bacterial whole-cell biosensors in environmental health. In Biosensors and Environmental Health (Preedy, V.R. and Patel, V.B., eds), pp. 127-148, CRC Press, Boca Raton
5. van der Meer, J.R. and Belkin, S. (2010) Where microbiology meets microengineering: design and applications of reporter bacteria. Nat. Rev. Microbiol. 8, 511-522
6. Okumoto, S., Jones, A. and Frommer, W.B. (2012) Quantitative imaging with fluorescent biosensors. Annu. Rev. Plant Biol. 63, 663-706
7. Behjousiar, A., Kontoravdi, C. and Polizzi, K.M. (2012) In situ monitoring of intracellular glucose and glutamine in CHO cell culture. PLoS ONE 7, e34512
8. Bourdes, A., Rudder, S., East, A.K. and Poole, P.S. (2012) Mining the Sinorhizobium meliloti transportome to develop FRET biosensors for sugars, dicarboxylates and cyclic polyols. PLoS ONE 7, e43578
9. Deuschle, K., Okumoto, S., Fehr, M., Looger, L.L., Kozhukh, L. and Frommer, W.B. (2005) Construction and optimization of a family of genetically encoded metabolite sensors by semirational protein engineering. Protein Sci. 14, 2304-2314
10. Fehr, M., Frommer, W.B. and Lalonde, S. (2002) Visualization of maltose uptake in living yeast cells by fluorescent nanosensors. Proc. Natl. Acad. Sci. U.S.A. 99, 9846-9851
11. Kaper, T., Looger, L.L., Takanaga, H., Platten, M., Steinman, L. and Frommer, W.B. (2007) Nanosensor detection of an immunoregulatory tryptophan influx/kynurenine efflux cycle. PLoS Biol. 5, 2201-2210
12. San Martin, A., Ceballo, S., Ruminot, I., Lerchundi, R., Frommer, W.B. and Barros, L.F. (2013) A genetically encoded FRET lactate sensor and its use to detect the Warburg effect in single cancer cells. PLoS ONE 8, e57712
13. Ha, J.-S., Song, J.J., Lee, Y.-M., Kim, S.-J., Sohn, J.-H., Shin, C.-S. and Lee, S.-G. (2007) Design and application of highly responsive fluorescence resonance energy transfer biosensors for detection of sugar in living Saccharomyces cerevisiae cells. Appl. Environ. Microbiol. 73, 7408-7414
14. Okada, S., Ota, K. and Ito, T. (2009) Circular permutation of ligand-binding module improves dynamic range of genetically encoded FRET-based nanosensor. Protein Sci. 18, 2518-2527
15. Bermejo, C., Haerizadeh, F., Takanaga, H., Chermak, D. and Frommer, W.B. (2011) Optical sensors for measuring dynamic changes of cytosolic metabolite levels in yeast. Nat. Protoc. 6, 1806-1817
16. Fehr, M., Lalonde, S., Ehrhardt, D.W. and Frommer, W.B. (2004) Live imaging of glucose homeostasis in nuclei of COS-7 cells. J. Fluoresc. 14, 603-609
17. Hou, B.H., Takanaga, H., Grossmann, G., Chen, L.Q., Qu, X.Q., Jones, A.M., Lalonde, S., Schweissgut, O., Wiechert, W. and Frommer, W.B. (2011) Optical sensors for monitoring dynamic changes of intracellular metabolite levels in mammalian cells. Nat. Protoc. 6, 1818-1833
18. Jin, S., Veetil, J.V., Garrett, J.R. and Ye, K.M. (2011) Construction of a panel of glucose indicator proteins for continuous glucose monitoring. Biosens. Bioelectron. 26, 3427-3431
19. Kreft, M., Luksic, M., Zorec, T.M., Prebil, M. and Zorec, R. (2013) Diffusion of d-glucose measured in the cytosol of a single astrocyte. Cell. Mol. Life Sci. 70, 1483-1492
20. Liemburg-Apers, D.C., Imamura, H., Forkink, M., Nooteboom, M., Swarts, H.G., Brock, R., Smeitink, J.A.M., Willems, P. and Koopman, W.J.H. (2011) Quantitative glucose and ATP sensing in mammalian cells. Pharm. Res. 28, 2745-2757
21. Gruenwald, K., Holland, J.T., Stromberg, V., Ahmad, A., Watcharakichkorn, D. and Okumoto, S. (2012) Visualization of glutamine transporter activities in living cells using genetically encoded glutamine sensors. PLoS ONE 7, e38591
22. + -independent glutamine transport in plant root tips. PLoS ONE 5, e8917
23. Dulla, C., Tani, H., Okumoto, S., Frommer, W.B., Reimer, R.J. and Fluguenard, J.R. (2008) Imaging of glutamate in brain slices using FRET sensors. J. Neurosci. Methods 168, 306-319
24. Hires, S.A., Zhu, Y.L. and Tsien, R.Y. (2008) Optical measurement of synaptic glutamate spillover and reuptake by linker optimized glutamate-sensitive fluorescent reporters. Proc. Natl. Acad. Sci. U.S.A. 105, 4411-4416
25. Okumoto, S., Looger, L.L., Micheva, K.D., Reimer, R.J., Smith, S.J. and Frommer, W.B. (2005) Detection of glutamate release from neurons by genetically encoded surface-displayed FRET nanosensors. Proc. Natl. Acad. Sci. U.S.A. 102, 8740-8745
26. Behera, A.K., Kretz, M., Oberfeld, B., Camargo, S.M.R. and Verrey, F.C.O. (2011) Characterization of improved l-tryptophan FRET biosensor for measurement of real time transport in live cells. FASEB J. 25, 1038.17
27. Bogner, M. and Ludewig, U. (2007) Visualization of arginine influx into plant cells using a specific FRET-sensor. J. Fluoresc. 17, 350-360
28. Ewald, J.C., Reich, S., Baumann, S., Frommer, W.B. and Zamboni, N. (2011) Engineering genetically encoded nanosensors for real-time in vivo measurements of citrate concentrations. PLoS ONE 6, e28245
29. Imamura, H., Nhat, K.P.H., Togawa, H., Saito, K., Iino, R., Kato-Yamada, Y., Nagai, T. and Noji, H. (2009) Visualization of ATP levels inside single living cells with fluorescence resonance energy transfer-based genetically encoded indicators. Proc. Natl. Acad. Sci. U.S.A. 106, 15651-15656
30. Lager, I., Looger, L.L., Hilpert, M., Lalonde, S. and Frommer, W.B. (2006) Conversion of a putative Agrobacterium sugar-binding protein into a FRET sensor with high selectivity for sucrose. J. Biol. Chem. 281, 30875-30883
31. Lager, I., Fehr, M., Frommer, W.B. and Lalonde, S.W. (2003) Development of a fluorescent nanosensor for ribose. FEBS Lett. 553, 85-89
32. Kotera, I., Iwasaki, T., Imamura, H., Noji, H. and Nagai, T. (2010) Reversible dimerization of Aequorea victoria fluorescent proteins increases the dynamic range of FRET-based indicators. ACS Chem. Biol. 5, 215-222
33. 2+ based on green fluorescent proteins and calmodulin. Nature 388, 882-887
34. 2+ homeostasis. Nat. Methods 6, 737-740
35. Gu, H., Lalonde, S., Okumoto, S., Looger, L.L., Scharff-Poulsen, A.M., Grossman, A.R., Kossmann, J., Jakobsen, I. and Frommer, W.B. (2006) A novel analytical method for in vivo phosphate tracking. FEBS Lett. 580, 5885-5893
36. Bermejo, C., Ewald, J.C., Lanquar, V., Jones, A.M. and Frommer, W.B. (2011) In vivo biochemistry: quantifying ion and metabolite levels in individual cells or cultures of yeast. Biochem. J. 438, 1-10
37. Yano, T., Oku, M., Akeyama, N., Itoyama, A., Yurimoto, H., Kuge, S., Fujiki, Y. and Sakai, Y. (2010) A novel fluorescent sensor protein for visualization of redox states in the cytoplasm and in peroxisomes. Mol. Cell. Biol. 30, 3758-3766
38. Lin, C., Kolossov, V.L., Tsvid, G., Trump, L., Henry, J.J., Henderson, J.L., Rund, L.A., Kenis, P.J.A., Schook, L.B., Gaskins, H.R. and Timp, G. (2011) Imaging in real-time with FRET the redox response of tumorigenic cells to glutathione perturbations in a microscale flow. Integr. Biol. 3, 208-217
39. Selvarasu, S., Ho, Y.S., Chong, W.P.K., Wong, N.S.C., Yusufi, F.N.K., Lee, Y.Y., Yap, M.G.S. and Lee, D.Y. (2012) Combined in silico modeling and metabolomics analysis to characterize fed-batch CHO cell culture. Biotechnol. Bioeng. 109, 1415-1429
40. Lohman, J.R. and Remington, S.J. (2008) Development of a family of redox-sensitive green fluorescent protein indicators for use in relatively oxidizing subcellular environments. Biochemistry 47, 8678-8688
41. Merksamer, P.I., Trusina, A. and Papa, F.R. (2008) Real-time redox measurements during endoplasmic reticulum stress reveal interlinked protein folding functions. Cell 135, 933-947
42. 2 probe with improved performance for ratiometric and fluorescence lifetime imaging. ACS Chem. Biol. 8, 535-542
43. Gjetting, K.S.K., Ytting, C.K., Schulz, A. and Fuglsang, A.T. (2012) Live imaging of intra-and extracellular pH in plants using pHusion, a novel genetically encoded biosensor. J. Exp. Bot. 63, 3207-3218
44. Urra, J., Sandoval, M., Cornejo, I., Barros, L.F., Sepulveda, F.V. and Cid, L.P. (2008) A genetically encoded ratiometric sensor to measure extracellular pH in microdomains bounded by basolateral membranes of epithelial cells. Pflügers Arch. 457, 233-242
45. 2+, redox status, ROS and pH using GFP biosensors. Plant J. 70, 118-128
46. Seward, H.E., Basran, J., Denton, R., Pfuhl, M., Muskett, F.W. and Bagshaw, C.R. (2013) Halide and proton binding kinetics of yellow fluorescent protein variants. Biochemistry 52, 2482-2491
47. Paroutis, P., Touret, N. and Grinstein, S. (2004) The pH of the secretory pathway: measurement, determinants, and regulation. Physiology 19, 207-215
48. Potzkei, J., Kunze, M., Drepper, T., Gensch, T., Jaeger, K.E. and Buchs, J. (2012) Real-time determination of intracellular oxygen in bacteria using a genetically encoded FRET-based biosensor. BMC Biol. 10, 28
49. Golynskiy, M.V., Rurup, W.F. and Merkx, M. (2010) Antibody detection by using a FRET-based protein conformational switch. ChemBioChem 11, 2264-2267
50. del Val, I.J., Jedrzejewski, P.M., Exley, K., Sou, S.N., Kyriakopoulos, S., Polizzi, K.M. and Kontoravdi, C. (2012) Application of quality by design paradigm to the manufacture of protein therapeutics. In Glycosylation (Petrescu, S., ed.), InTech, Rijeka